Annotation and query of tissue microarray data using the NCI Thesaurus (2007)
Shah, Nigam H, Rubin, Daniel L, Espinosa, Inigo, Montgomery, Kelli, Musen, Mark A
Abstract Background The Stanford Tissue Microarray Database (TMAD) is a repository of data serving a consortium of pathologists and biomedical researchers. The tissue samples in TMAD are annotated...
Correction: A DNA microarray survey of gene expression in normal human tissues (2005)
Shyamsundar, Radha, Kim, Young H, Higgins, John P, Montgomery, Kelli, Jorden, Michelle, Sethuraman, Anand, ...
No abstract available.
Determination of Stromal Signatures in Breast Carcinoma (2005)
Robert B. West, Subbaya Subramanian, Torsten O. Nielsen, Christopher L. Corless, Brian P. Rubin, ...
The authors used two different fibroblastic tumors to identify markers expressed by normal stroma cells (the supporting framework of body tissues and/or tumors), and show that different stromal...
Determination of Stromal Signatures in Breast Carcinoma (2005)
Robert B. West, Subbaya Subramanian, Torsten O. Nielsen, Christopher L. Corless, Brian P. Rubin, ...
Many soft tissue tumors recapitulate features of normal connective tissue. We hypothesize that different types of fibroblastic tumors are representative of different populations of fibroblastic cells...
A DNA microarray survey of gene expression in normal human tissues (2005)
Shyamsundar, Radha, Kim, Young H, Higgins, John P, Montgomery, Kelli, Jorden, Michelle, Sethuraman, Anand, ...
Abstract Background Numerous studies have used DNA microarrays to survey gene expression in cancer and other disease states. Comparatively little is known about the genes expressed across the gamut...
Howard Y. Chang, Julie B. Sneddon, Ash A. Alizadeh, Ruchira Sood, Rob B. West, Kelli Montgomery, ...
The transcriptional signature of the response of fibroblasts to serum provides a possible link between cancer progression and wound healing, as well as a predictor of the clinical course in several...
Howard Y. Chang, Julie B. Sneddon, Ash A. Alizadeh, Ruchira Sood, Rob B. West, Kelli Montgomery, ...
Cancer invasion and metastasis have been likened to wound healing gone awry. Despite parallels in cellular behavior between cancer progression and wound healing, the molecular relationships between...
Chang, Howard Y, Sneddon, Julie B, Alizadeh, Ash A, Sood, Ruchira, West, Rob B, Montgomery, Kelli, ...
Cancer invasion and metastasis have been likened to wound healing gone awry. Despite parallels in cellular behavior between cancer progression and wound healing, the molecular relationships between...
Gene expression profiling identifies clinically relevant subtypes of prostate cancer
Lapointe, Jacques, Li, Chunde, Higgins, John P., Van De Rijn, Matt, Bair, Eric, Montgomery, Kelli, ...
Prostate cancer, a leading cause of cancer death, displays a broad range of clinical behavior from relatively indolent to aggressive metastatic disease. To explore potential molecular variation...
Gene Expression in the Normal Adult Human Kidney Assessed by Complementary DNA Microarray
Higgins, John P.T., Wang, Lingli, Kambham, Neeraja, Montgomery, Kelli, Mason, Veronica, Vogelmann, Stefanie U., ...
The kidney is a highly specialized organ with a complex, stereotyped architecture and a great diversity of functions and cell types. Because the microscopic organization of the nephron, the...
A DNA microarray survey of gene expression in normal human tissues
Shyamsundar, Radha, Kim, Young H, Higgins, John P, Montgomery, Kelli, Jorden, Michelle, Sethuraman, Anand, ...
A systematic survey of gene expression in 115 human tissue samples using cDNA microarrays provides a dataset that can be used as a baseline for comparison with expression in diseased tissue.
Determination of Stromal Signatures in Breast Carcinoma
West, Robert B, Nuyten, Dimitry S. A, Subramanian, Subbaya, Nielsen, Torsten O, Corless, Christopher L, Rubin, Brian P, ...
Many soft tissue tumors recapitulate features of normal connective tissue. We hypothesize that different types of fibroblastic tumors are representative of different populations of fibroblastic cells...
Correction: A DNA microarray survey of gene expression in normal human tissues
Shyamsundar, Radha, Kim, Young H, Higgins, John P, Montgomery, Kelli, Jorden, Michelle, Sethuraman, Anand, ...
A correction to A DNA microarray survey of gene expression in normal human tissues by R Shyamsundar, YH Kim, JP Higgins, K Montgomery, M Jorden, A Sethuraman, M van de Rijn, D Botstein, PO Brown and...
West, Robert B., Rubin, Brian P., Miller, Melinda A., Subramanian, Subbaya, Kaygusuz, Gulsah, Montgomery, Kelli, ...
Tenosynovial giant-cell tumor (TGCT) and pigmented villonodular synovitis (PVNS) are related conditions with features of both reactive inflammatory disorders and clonal neoplastic proliferations....
Chang, Howard Y, Sneddon, Julie B, Alizadeh, Ash A, Sood, Ruchira, West, Rob B, Montgomery, Kelli, ...
Cancer invasion and metastasis have been likened to wound healing gone awry. Despite parallels in cellular behavior between cancer progression and wound healing, the molecular relationships between...
Gene expression profiling identifies clinically relevant subtypes of prostate cancer
Lapointe, Jacques, Li, Chunde, Higgins, John P., Van De Rijn, Matt, Bair, Eric, Montgomery, Kelli, ...
Prostate cancer, a leading cause of cancer death, displays a broad range of clinical behavior from relatively indolent to aggressive metastatic disease. To explore potential molecular variation...
Gene Expression in the Normal Adult Human Kidney Assessed by Complementary DNA Microarray
Higgins, John P.T., Wang, Lingli, Kambham, Neeraja, Montgomery, Kelli, Mason, Veronica, Vogelmann, Stefanie U., ...
The kidney is a highly specialized organ with a complex, stereotyped architecture and a great diversity of functions and cell types. Because the microscopic organization of the nephron, the...
A DNA microarray survey of gene expression in normal human tissues
Shyamsundar, Radha, Kim, Young H, Higgins, John P, Montgomery, Kelli, Jorden, Michelle, Sethuraman, Anand, ...
A systematic survey of gene expression in 115 human tissue samples using cDNA microarrays provides a dataset that can be used as a baseline for comparison with expression in diseased tissue.
Determination of Stromal Signatures in Breast Carcinoma
West, Robert B, Nuyten, Dimitry S. A, Subramanian, Subbaya, Nielsen, Torsten O, Corless, Christopher L, Rubin, Brian P, ...
Many soft tissue tumors recapitulate features of normal connective tissue. We hypothesize that different types of fibroblastic tumors are representative of different populations of fibroblastic cells...
Correction: A DNA microarray survey of gene expression in normal human tissues
Shyamsundar, Radha, Kim, Young H, Higgins, John P, Montgomery, Kelli, Jorden, Michelle, Sethuraman, Anand, ...
A correction to A DNA microarray survey of gene expression in normal human tissues by R Shyamsundar, YH Kim, JP Higgins, K Montgomery, M Jorden, A Sethuraman, M van de Rijn, D Botstein, PO Brown and...
West, Robert B., Rubin, Brian P., Miller, Melinda A., Subramanian, Subbaya, Kaygusuz, Gulsah, Montgomery, Kelli, ...
Tenosynovial giant-cell tumor (TGCT) and pigmented villonodular synovitis (PVNS) are related conditions with features of both reactive inflammatory disorders and clonal neoplastic proliferations....
West, Robert B., Corless, Christopher L., Chen, Xin, Rubin, Brian P., Subramanian, Subbaya, Montgomery, Kelli, ...
We recently characterized gene expression patterns in gastrointestinal stromal tumors (GISTs) using cDNA microarrays, and found that the gene FLJ10261 (DOG1, discovered on GIST-1), encoding a...
Sneddon, Julie B., Zhen, Hanson H., Montgomery, Kelli, Van De Rijn, Matt, Tward, Aaron D., West, Robert, ...
Although tissue microenvironments play critical roles in epithelial development and tumorigenesis, the factors mediating these effects are poorly understood. In this work, we used a genomic approach...
Liu, Chih Long, Prapong, Wijan, Natkunam, Yasodha, Alizadeh, Ash, Montgomery, Kelli, Gilks, C. Blake, ...
The creation of tissue microarrays (TMAs) allows for the rapid immunohistochemical analysis of thousands of tissue samples, with numerous different antibodies per sample. This technical development...
Annotation and query of tissue microarray data using the NCI Thesaurus
Shah, Nigam H, Rubin, Daniel L, Espinosa, Inigo, Montgomery, Kelli, Musen, Mark A
Lehman, Norman L., Tibshirani, Rob, Hsu, Jerry Y., Natkunam, Yasodha, Harris, Brent T., West, Robert B., ...
The fidelity of cell division is dependent on the accumulation and ordered destruction of critical protein regulators. By triggering the appropriately timed, ubiquitin-dependent proteolysis of the...
The Stanford Tissue Microarray Database
Marinelli, Robert J., Montgomery, Kelli, Liu, Chih Long, Shah, Nigam H., Prapong, Wijan, Nitzberg, Michael, ...
The Stanford Tissue Microarray Database (TMAD; http://tma.stanford.edu) is a public resource for disseminating annotated tissue images and associated expression data. Stanford University...
Genomic Profiling Identifies GATA6 as a Candidate Oncogene Amplified in Pancreatobiliary Cancer
Kwei, Kevin A., Bashyam, Murali D., Kao, Jessica, Ratheesh, Raman, Reddy, Edumakanti C., Kim, Young H., ...
Pancreatobiliary cancers have among the highest mortality rates of any cancer type. Discovering the full spectrum of molecular genetic alterations may suggest new avenues for therapy. To catalogue...